Package: SeqNet
Title: Generate RNA-Seq Data from Gene-Gene Association Networks
Version: 1.1.4
Authors@R: c(person("Tyler", "Grimes", role = c("aut", "cre"),
                    email = "tyler.grimes@unf.edu"),
             person("Somnath", "Datta", role = c("aut")))
Author: Tyler Grimes [aut, cre], Somnath Datta [aut]
Maintainer: Tyler Grimes <tyler.grimes@unf.edu>
Description: Methods to generate random gene-gene association networks
        and simulate RNA-seq data from them, as described in Grimes and
        Datta (2021) <doi:10.18637/jss.v098.i12>. Includes functions to
        generate random networks of any size and perturb them to obtain
        differential networks. Network objects are built from
        individual, overlapping modules that represent pathways. The
        resulting network has various topological properties that are
        characteristic of gene regulatory networks. RNA-seq data can be
        generated such that the association among gene expression
        profiles reflect the underlying network. A reference RNA-seq
        dataset can be provided to model realistic marginal
        distributions. Plotting functions are available to visualize a
        network, compare two networks, and compare the expression of
        two genes across multiple networks.
Depends: R (>= 4.0.0)
Imports: fitdistrplus, ggplot2, grDevices, graphics, igraph, mvtnorm,
        purrr, tibble, Rcpp, rlang, Rdpack, stats, utils, methods
Suggests: knitr, rmarkdown, testthat
RdMacros: Rdpack
VignetteBuilder: knitr
License: GPL-2 | GPL-3
Encoding: UTF-8
LazyData: true
LazyDataCompression: xz
RoxygenNote: 7.1.1
LinkingTo: Rcpp
Config/pak/sysreqs: libglpk-dev libxml2-dev
Repository: https://tgrimes.r-universe.dev
Date/Publication: 2026-09-28 21:55:24 UTC
RemoteUrl: https://github.com/tgrimes/seqnet
RemoteRef: HEAD
RemoteSha: bf4e8b07862c1376ccf93ab5ae445816228a45ef
NeedsCompilation: yes
Packaged: 2026-10-11 10:49:51 UTC; root